genome.fa.s8229.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  5  of  17  ( 2034 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
890047--890092	19	2.4	19	88	0	74	86	10	2	0	0.64
890046--890109	30	2.2	29	86	8	85	79	15	4	0	0.89
890047--890102	21	2.8	21	89	7	82	83	12	3	0	0.76
894169--894275	50	2.1	50	78	11	112	20	19	22	37	1.94
896484--896530	22	2.2	21	92	3	76	0	6	12	80	0.88
896491--896542	23	2.4	21	90	6	77	0	3	9	86	0.69
896491--896542	11	4.6	11	88	4	77	0	3	9	86	0.69
898909--898947	21	1.9	21	94	5	71	25	12	23	38	1.90
910043--910087	19	2.4	19	81	7	56	24	11	17	46	1.81
910629--910879	36	7.0	35	71	11	159	31	10	17	40	1.84
913906--913968	28	2.2	28	94	0	108	36	25	15	22	1.94
917839--917878	20	2.0	20	100	0	80	50	5	20	25	1.68
920438--920478	22	1.9	21	85	5	55	34	12	12	41	1.80
921311--921665	101	3.5	100	74	12	299	37	10	11	40	1.76
923595--923738	76	1.9	76	82	4	175	38	16	9	34	1.82
923851--924011	78	2.1	78	80	6	175	32	13	13	40	1.83
923371--924140	264	2.9	260	81	5	864	32	16	10	40	1.83
925076--925120	13	3.4	13	85	14	65	53	2	2	42	1.25
925706--925796	13	7.0	13	80	0	101	27	19	16	36	1.93
925706--925796	26	3.5	26	89	3	130	27	19	16	36	1.93
925706--925796	39	2.3	39	81	3	112	27	19	16	36	1.93
925768--925933	85	2.0	85	82	2	208	29	21	17	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
925953--925979	2	13.5	2	100	0	54	48	0	0	51	1.00
928881--929054	29	6.2	29	72	11	78	45	16	2	36	1.60
929070--929108	18	2.2	18	95	0	69	10	17	51	20	1.74
932377--932736	99	3.6	99	85	3	454	36	11	16	35	1.85
933585--933696	2	56.0	2	100	0	224	50	0	50	0	1.00
934998--935134	70	1.9	71	92	1	231	27	20	21	30	1.98
936483--936544	2	31.0	2	100	0	124	50	0	0	50	1.00
943107--943176	20	3.5	20	74	20	65	30	24	15	30	1.96
944482--944510	12	2.4	12	100	0	58	41	24	17	17	1.90
946805--946854	20	2.5	20	80	3	55	48	6	6	40	1.52
946872--947004	26	5.3	26	75	13	84	43	3	7	45	1.50
946876--947006	49	2.6	50	80	9	126	43	3	7	45	1.50
946872--947006	25	5.4	25	75	14	118	43	3	7	45	1.49
946987--947051	34	1.9	34	90	6	105	41	4	6	47	1.49
947126--947173	9	5.4	9	82	5	53	31	6	4	58	1.42
947828--947864	20	1.9	19	89	10	58	70	8	8	13	1.34
961035--961100	20	3.3	20	77	12	73	40	3	7	48	1.47
961033--961097	19	3.5	18	78	12	69	41	3	7	47	1.48
961109--961133	2	12.5	2	100	0	50	0	0	48	52	1.00
961133--961240	25	4.3	25	80	4	119	42	3	8	45	1.52
961133--961240	50	2.2	50	85	5	139	42	3	8	45	1.52
961279--961365	41	2.1	41	91	4	140	45	2	6	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961376--961429	3	18.3	3	84	3	65	38	1	0	59	1.08
965337--965385	21	2.5	20	80	6	55	55	0	4	40	1.19
969105--969178	2	37.0	2	100	0	148	50	0	0	50	1.00
970917--970963	18	2.6	18	76	10	60	40	2	0	57	1.11
980752--980789	9	4.0	10	83	13	53	10	7	10	71	1.32
982800--982824	11	2.3	11	100	0	50	68	8	8	16	1.38
983316--983364	23	2.1	23	85	7	64	57	14	2	26	1.48
986631--986675	20	2.2	20	84	7	56	64	0	22	13	1.28
991191--991256	21	3.1	21	84	0	87	30	16	22	30	1.96
993544--993592	23	2.1	23	85	7	64	57	14	2	26	1.48
996015--996053	13	2.8	13	81	11	51	76	7	15	0	0.99
995963--996106	69	2.1	70	79	11	154	71	6	19	2	1.19
995966--996078	17	6.4	17	71	18	88	73	6	18	1	1.13
996006--996092	24	3.5	24	83	11	111	73	6	18	1	1.12
997230--997299	37	1.9	35	85	5	95	35	17	11	35	1.85
997248--997314	33	2.0	34	85	11	93	35	19	10	34	1.86
997543--997729	36	5.6	34	64	26	96	22	19	16	41	1.90
997538--997866	65	5.0	65	88	4	425	23	20	14	41	1.90
997579--997759	29	5.7	29	68	23	89	22	20	16	40	1.91
997868--998228	131	2.7	133	80	5	408	27	31	16	25	1.97
997888--998255	134	2.8	132	78	4	391	26	30	16	26	1.97
998458--998496	3	13.0	3	88	0	60	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
998495--998519	3	8.3	3	100	0	50	36	0	0	64	0.94
1001052--1001103	24	2.2	24	80	10	63	38	3	3	53	1.37
1005423--1005506	40	2.1	40	93	0	141	26	21	9	42	1.83
1008038--1008073	2	18.0	2	100	0	72	50	0	0	50	1.00
1007958--1008054	37	2.6	37	77	9	101	45	3	9	42	1.52
1008142--1008214	7	11.0	7	76	15	57	35	0	2	61	1.10
1008165--1008222	13	4.1	15	75	22	63	32	0	0	67	0.91
1008164--1008228	4	16.0	4	73	20	55	32	1	0	66	1.01
1008147--1008222	23	3.3	23	82	14	77	32	0	2	64	1.07
1008164--1008218	7	7.9	7	80	15	60	32	0	0	67	0.91
1010519--1010548	11	2.7	11	100	0	60	16	10	0	73	1.09
1012668--1012937	37	7.1	38	75	13	200	43	5	9	41	1.60
1012925--1012951	2	13.5	2	100	0	54	51	0	0	48	1.00
1012966--1013033	26	2.9	24	85	14	90	47	2	5	44	1.42
1013035--1013099	16	4.3	15	76	23	64	32	0	0	67	0.91
1013036--1013068	16	2.1	16	100	0	66	36	0	0	63	0.95
1013042--1013115	10	7.4	10	76	18	66	29	1	0	68	0.97
1013061--1013115	12	4.9	11	81	16	60	27	1	0	70	0.97
1016728--1016776	25	1.9	26	91	4	82	59	4	2	34	1.28
1017352--1017897	280	2.0	280	93	0	939	41	15	15	28	1.87
1021146--1021226	11	7.1	11	70	20	51	30	2	0	66	1.05
1021232--1021266	16	2.2	16	89	0	52	8	5	8	77	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021272--1021307	16	2.2	16	90	0	54	13	13	0	72	1.13
1021351--1021397	22	2.1	22	84	7	60	14	4	0	80	0.85
1026757--1027255	85	5.8	85	86	3	635	34	21	18	25	1.96
1026757--1027227	171	2.8	171	87	2	651	35	21	18	24	1.96
1029408--1029437	15	1.9	16	93	6	53	6	13	0	80	0.91
1029402--1029459	26	2.2	24	77	16	62	8	10	3	77	1.10
1029453--1029529	40	1.9	39	82	7	93	15	7	1	75	1.09
1030448--1030519	25	2.9	23	75	17	65	36	1	4	58	1.26
1030448--1030503	25	2.3	24	81	9	69	37	1	3	57	1.27
1031281--1031326	18	2.6	18	80	13	58	52	13	2	32	1.52
1034229--1034287	30	2.0	30	86	0	82	47	5	10	37	1.59
1035551--1035757	39	5.3	40	84	4	235	18	28	22	30	1.97
1035551--1035761	78	2.7	78	84	2	264	18	28	22	30	1.98
1042438--1042605	39	4.3	39	89	0	246	15	28	23	32	1.95
1044722--1044747	13	2.0	13	100	0	52	61	0	15	23	1.33
1045505--1045684	64	2.8	62	80	9	191	27	18	23	30	1.98
1045525--1045684	65	2.5	64	85	5	207	27	18	23	30	1.98
1045695--1045732	20	1.9	20	94	0	67	18	15	34	31	1.92
1048363--1048437	21	3.4	22	75	5	80	26	21	24	28	1.99
1048363--1048456	21	4.4	21	76	9	75	26	19	24	29	1.98
1054206--1054385	64	2.8	62	81	9	200	27	18	25	28	1.98
1054226--1054385	65	2.5	64	86	5	216	27	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054396--1054433	20	1.9	20	94	0	67	18	15	34	31	1.92
1054226--1054434	65	3.2	65	78	12	191	26	18	24	30	1.98
1063560--1063614	22	2.5	22	78	0	65	30	9	21	38	1.85
1084752--1084803	13	3.7	13	82	12	59	15	15	1	67	1.32
1089883--1089947	4	15.8	4	73	23	55	24	1	1	72	1.02
1092456--1092488	13	2.5	13	95	0	57	9	15	0	75	1.03
1094503--1094531	3	9.7	3	100	0	58	34	0	0	65	0.93
1106972--1107023	3	17.0	3	84	11	70	67	0	1	30	1.02
1106973--1107023	13	4.1	13	90	5	79	68	0	1	29	1.00
1107437--1107480	13	3.2	14	81	15	56	36	13	15	34	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17